212
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to search→HapMap format reference files
HapMap format files can be downloaded from http://hapmap.org/downloads/phasing/2006-07_phaseII/phased/ or http://hapmap.org/downloads/phasing/2007-08_rel22/phased/
HapMap format files can be downloaded from http://hapmap.org/downloads/phasing/2006-07_phaseII/phased/ or http://hapmap.org/downloads/phasing/2007-08_rel22/phased/
HapMapIII phased haplotypes are in different format, you will need to use our converted haplotypes available at http://www.sph.umich.edu/csg/yli/mach/download/HapMap3.r2.b36.html
When using HapMap format files, turn on --hapmapFormat option. For example:
When using HapMap format files, turn on --hapmapFormat option. For example:
mach1 -d sample.dat -p sample.ped -s genotypes_chr14_CEU_r21_nr_fwd_legend.txt -h genotypes_chr14_CEU_r21_nr_fwd_phased.gz --hapmapFormat ...
mach1 -d sample.dat -p sample.ped -s genotypes_chr14_CEU_r21_nr_fwd_legend.txt -h genotypes_chr14_CEU_r21_nr_fwd_phased.gz --hapmapFormat ...
